Publications

Cancers | December, 2021

EWSR1-WT1 Target Genes and Therapeutic Options Identified in a Novel DSRCT In Vitro Model

Bleijs et al. established a patient-derived in vitro model of the rare and life-threatening cancer desmoplastic small round cell tumor. They used SORT-seq to check how the model’s heterogeneity compared to the original tumor’s. Then, the authors identified tyrosine kinase MERTK as a potential therapeutic target.

SORT-seq Human Mesothelium Organoids Tumor tissue

PNAS | November, 2021

Molecular characterization of Barrett’s esophagus at single-cell resolution

Barrett’s esophagus is the premalignant condition of esophageal adenocarcinoma. It is categorized into different stages which correlate with the risk of developing carcinoma. Busslinger et al. performed single-cell RNA sequencing to identify seven genes that facilitate the distinction between different Barrett’s esophagus stages on histological sections.

SORT-seq Human Esophagus Tumor tissue

Research from our own scientists

Scientific Reports | November, 2021

Single cell transcriptomics reveals the heterogeneity of the human cornea to identify novel markers of the limbus and stroma

What is the cornea made of? Català et al. performed single-cell transcriptomic profiling of 19,472 cells isolated from eight healthy donor corneas. In this paper, they depict the diverse cell populations and provide a comprehensive cell atlas of the healthy human cornea.

10x Genomics Data Consultancy Human Eyes

Developmental Dynamics | November, 2021

LGR6 marks nephron progenitor cells

Nephron progenitor cells develop into all mature structures of the kidney through a stepwise process called mesenchymal to epithelial transition. Van Ineveld et al. identify protein LGR6 as a marker specific to nephron progenitor cells by combining single-cell RNA sequencing and in vivo lineage tracing techniques.

SORT-seq Mouse Embryo Kidney

Nature Communications | October, 2021

CD127+ CD94+ innate lymphoid cells expressing granulysin and perforin are expanded in patients with Crohn’s disease

The researchers designate two distinct innate lymphoid cell subtypes. Then, using single-cell RNA sequencing and further characterization methods, one subtype was found to express toxic compounds granulysin and perforin in the intestines of Chron’s disease patients.

SORT-seq Human Intestine

BioRxiv | October, 2021

Functional single cell selection and annotated profiling of dynamically changing cancer cells

You et al. present FUN-seq, a combination of functional single-cell selection, using microscopic tagging and FACS, and SORT-seq. Applied to cultured tumor cells, it shines a light on the transcriptional processes underlying the epithelial-to-mesenchymal transition.

SORT-seq Human Cell culture Tumor tissue

Nature Communications | September, 2021

A human liver cell-based system modeling a clinical prognostic liver signature for therapeutic discovery

A lack of suitable experimental models hampers drug discovery for chronic liver disease and hepatocellular carcinoma. So Crouchet et al. developed a human liver cell–based model predicting long-term liver disease progression toward hepatocellular carcinoma. They identified nizatidine as a potential therapeutic and, with single-cell RNA sequencing, could identify hepatocytes and certain liver macrophage subtypes as a potential therapeutical targets.

SORT-seq Human Liver

Nature Communications | September, 2021

Sequential actions of EOMES and T-BET promote stepwise maturation of natural killer cells

SORT-seq Mouse Immune system Liver Spleen

Development | September, 2021

Prrx1b restricts fibrosis and promotes Nrg1-dependent cardiomyocyte proliferation during zebrafish heart regeneration

SORT-seq Zebrafish Heart

STAR Protocols | September, 2021

Collection of cells for single-cell RNA sequencing using high-resolution fluorescence microscopy

Segeren et al. describe a workflow to capture, image, and collect fluorescent human retina pigment epithelium cells for SORT-seq using the VYCAP puncher system. This protocol is relevant for cells that cannot be FACS-sorted.

SORT-seq Human Eyes Intestine Liver

Journal of Experimental Medicine | August, 2021

Characterization of human FDCs reveals regulation of T cells and antigen presentation to B cells

SORT-seq Human Immune system

Life Science Alliance | July, 2021

Hepatitis B virus compartmentalization and single-cell differentiation in hepatocellular carcinoma

The authors applied SORT-seq and Smart-seq2 to study the interactions between hepatitis B virus and patient-derived hepatocellular carcinoma host cells. They detected active virus replication correlated with host factor expression at the single-cell level.

SORT-seq Human Liver Tumor tissue

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